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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $species_info = array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ) $local_species = 'cbr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $species_info = array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ) $local_species = 'cbr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $species_info = array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ) $local_species = 'cqu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $species_info = array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ) $local_species = 'cqu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $species_info = array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ) $local_species = 'mco' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $species_info = array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ) $local_species = 'mco' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $species_info = array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ) $local_species = 'pco' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $species_info = array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ) $local_species = 'pco' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $species_info = array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ) $local_species = 'shi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $species_info = array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ) $local_species = 'shi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $species_info = array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ) $local_species = 'spa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $species_info = array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ) $local_species = 'spa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ), 'gf_id' => 'HOM05D001030', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001030' ), 'data_identifier' => 'HOM05D001030', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001030', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '589', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p35590' => 'bna', 'A02p19660' => 'bna', 'A02p19740' => 'bna', 'A04p03010' => 'bna', 'A05p30710' => 'bna', 'A07p23520' => 'bna', 'A07p23560' => 'bna', 'A07p29110' => 'bna', 'A08p02930' => 'bna', 'A09p50500' => 'bna', 'Aa31LG10G12430' => 'aar', 'Aa31LG10G3490' => 'aar', 'Aa31LG4G5250' => 'aar', 'Aa31LG4G5360' => 'aar', 'Aa31LG8G5690' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3280' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3300' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.2889' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.5021' => 'aag', 'Actinidia06899' => 'ach', 'Actinidia09358' => 'ach', 'Actinidia15300' => 'ach', 'Actinidia16325' => 'ach', 'Actinidia17828' => 'ach', 'Actinidia20284' => 'ach', 'Ah.01g019640' => 'amhyb', 'Ah.04g151910' => 'amhyb', 'Ah.04g151920' => 'amhyb', 'Ah.06g194340' => 'amhyb', 'Ah.09g223890' => 'amhyb', 'Ah.13g076260' => 'amhyb', 'AL1G59090' => 'aly', 'AL1G59100' => 'aly', 'AL2G34900' => 'aly', 'AL3G32240' => 'aly', 'AL5G39270' => 'aly', 'Aqoxy1G00238' => 'aox', 'Aqoxy6G01009' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2K2QP4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3XBT3V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3ZSL29' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5S9WAC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AB13B4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FDJT5A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QG5VWG' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R0DZQ3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R4EZU5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.S2V0TW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1UDQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UL6NUJ' => 'arhy', 'AT1G51260' => 'ath', 'AT1G75020' => 'ath', 'AT3G18850' => 'ath', 'AT3G57650' => 'ath', 'ATR0602G079' => 'atr', 'ATR0733G218' => 'atr', 'Atru.chr1.1035' => 'acertr', 'Atru.chr13.550' => 'acertr', 'Atru.chr3.2745' => 'acertr', 'Atru.chr5.2938' => 'acertr', 'Atru.chr5.2939' => 'acertr', 'AUR62000108' => 'cqu', 'AUR62011359' => 'cqu', 'AUR62014528' => 'cqu', 'AUR62016702' => 'cqu', 'AUR62019285' => 'cqu', 'AUR62024399' => 'cqu', 'AUR62025993' => 'cqu', 'AUR62033858' => 'cqu', 'AUR62041667' => 'cqu', 'BcaB02g06979' => 'bca', 'BcaB02g06984' => 'bca', 'BcaB02g07588' => 'bca', 'BcaB02g08306' => 'bca', 'BcaB02g11230' => 'bca', 'BcaB03g12152' => 'bca', 'BcaB04g17219' => 'bca', 'BcaB04g20740' => 'bca', 'BcaB05g24881' => 'bca', 'BcaB06g25939' => 'bca', 'BcaC01g00094' => 'bca', 'BcaC01g01261' => 'bca', 'BcaC02g09952' => 'bca', 'BcaC03g15538' => 'bca', 'BcaC05g27354' => 'bca', 'BcaC05g28562' => 'bca', 'BcaC07g40145' => 'bca', 'BcaC07g40357' => 'bca', 'BcaC08g44856' => 'bca', 'BcaC09g48856' => 'bca', 'BolC1t04490H' => 'bol', 'BolC2t09257H' => 'bol', 'BolC3t17277H' => 'bol', 'BolC3t21312H' => 'bol', 'BolC4t25032H' => 'bol', 'BolC5t33387H' => 'bol', 'BolC6t37614H' => 'bol', 'BolC6t37621H' => 'bol', 'BolC6t38415H' => 'bol', 'BolC7t41237H' => 'bol', 'BolC7t41240H' => 'bol', 'BolC8t50923H' => 'bol', 'BraA01t03640Z' => 'bra', 'BraA02t07002Z' => 'bra', 'BraA02t07010Z' => 'bra', 'BraA04t16024Z' => 'bra', 'BraA05t20875Z' => 'bra', 'BraA05t21912Z' => 'bra', 'BraA07t30014Z' => 'bra', 'BraA07t30550Z' => 'bra', 'BraA08t32325Z' => 'bra', 'BraA08t32326Z' => 'bra', 'BraA09t40501Z' => 'bra', 'C01p45170' => 'bna', 'C02p32210' => 'bna', 'C03p49820' => 'bna', 'C03p89930' => 'bna', 'C04p34800' => 'bna', 'C05p46590' => 'bna', 'C06p24660' => 'bna', 'C06p32940' => 'bna', 'C07p08210' => 'bna', 'C07p08240' => 'bna', 'C08p33220' => 'bna', 'CAN.G1161.2' => 'can', 'CAN.G322.109' => 'can', 'CAN.G364.7' => 'can', 'CAN.G371.129' => 'can', 'CAN.G599.7' => 'can', 'CANSAT25G0578' => 'cansat', 'CANSAT25G1023' => 'cansat', 'CANSAT56G1294' => 'cansat', 'CANSAT80G0538' => 'cansat', 'CARHR041370' => 'chi', 'CARHR041390' => 'chi', 'CARHR068330' => 'chi', 'CARHR094300' => 'chi', 'CARHR167910' => 'chi', 'CARHR180530' => 'chi', 'CARHR289530' => 'chi', 'Carub.0001s4016' => 'cru', 'Carub.0002s2180' => 'cru', 'Carub.0003s1869' => 'cru', 'Carub.0005s2448' => 'cru', 'Ca_01294_v3' => 'car', 'Ca_08482_v3' => 'car', 'Ca_13335_v3' => 'car', 'Ca_17468_v3' => 'car', 'Ca_20847_v3' => 'car', 'Ca_25865_v3' => 'car', 'CBR_g19539' => 'cbr', 'CBR_g40183' => 'cbr', 'Cc00_g04860' => 'ccan', 'Cc02_g17890' => 'ccan', 'Cc06_g16600' => 'ccan', 'Cc10_g03380' => 'ccan', 'CDE04G1721' => 'cde', 'CDE05G1468' => 'cde', 'CDE05G2348' => 'cde', 'CDE06G2197' => 'cde', 'Cfa004976' => 'cfa', 'Cfa009759' => 'cfa', 'Cfa016859' => 'cfa', 'Cfa018445' => 'cfa', 'Ciclev10001493m.g' => 'ccl', 'Ciclev10003838m.g' => 'ccl', 'Ciclev10005148m.g' => 'ccl', 'Ciclev10015539m.g' => 'ccl', 'Ciclev10028764m.g' => 'ccl', 'CiPaw.05G061000' => 'cil', 'CiPaw.05G156500' => 'cil', 'CiPaw.05G157000' => 'cil', 'CiPaw.05G157500' => 'cil', 'CiPaw.10G031100' => 'cil', 'CiPaw.13G161900' => 'cil', 'CiPaw.13G162200' => 'cil', 'CiPaw.14G119700' => 'cil', 'CiPaw.15G072300' => 'cil', 'ClCG02G005290' => 'cla', 'ClCG03G013260' => 'cla', 'ClCG08G015370' => 'cla', 'ClCG10G017220' => 'cla', 'COL.COLO4_24886' => 'col', 'COL.COLO4_24887' => 'col', 'COL.COLO4_26378' => 'col', 'COL.COLO4_32462' => 'col', 'Cpa.g.sc62.110' => 'cpa', 'Cpa.g.sc64.45' => 'cpa', 'Cpa.g.sc84.67' => 'cpa', 'Cpa.g.sc84.68' => 'cpa', 'Cpa.g.sc92.10' => 'cpa', 'Cpa.g.sc92.11' => 'cpa', 'CsaV3_1G042840' => 'csa', 'CsaV3_2G028420' => 'csa', 'CsaV3_3G039170' => 'csa', 'CsaV3_7G023230' => 'csa', 'CSS0000810' => 'camsi', 'CSS0001423' => 'camsi', 'CSS0004224' => 'camsi', 'CSS0013587' => 'camsi', 'CSS0031572' => 'camsi', 'CSS0037444' => 'camsi', 'CSS0039186' => 'camsi', 'CSS0047602' => 'camsi', 'CSS0048764' => 'camsi', 'DCAR_009039' => 'dca', 'DCAR_013581' => 'dca', 'DCAR_019504' => 'dca', 'DCAR_020472' => 'dca', 'DCAR_022098' => 'dca', 'DCAR_028212' => 'dca', 'Dinv18085' => 'din', 'Dinv22186' => 'din', 'Dinv23555' => 'din', 'Dinv24127' => 'din', 'Dinv36041' => 'din', 'Dinv36268' => 'din', 'Duzib041G0229' => 'dzi', 'Duzib093G0850' => 'dzi', 'Duzib093G2097' => 'dzi', 'Duzib106G1947' => 'dzi', 'Duzib128G0586' => 'dzi', 'Duzib132G0716' => 'dzi', 'Duzib170G0726' => 'dzi', 'ECA232G2900' => 'eca', 'ECA234G1211' => 'eca', 'ECA247G0639' => 'eca', 'ECA247G2989' => 'eca', 'ECA248G1266' => 'eca', 'EL10Ac3g07019' => 'bvu', 'EL10Ac4g10267' => 'bvu', 'EL10Ac4g10283' => 'bvu', 'EL10Ac9g21761' => 'bvu', 'Eucgr.A02397' => 'egr', 'Eucgr.G00474' => 'egr', 'Eucgr.G01886' => 'egr', 'Eucgr.J00779' => 'egr', 'FAN02G2023' => 'fan', 'FAN02G4598' => 'fan', 'FAN05G1470' => 'fan', 'FAN05G2382' => 'fan', 'FAN05G4671' => 'fan', 'FAN09G3396' => 'fan', 'FAN09G3667' => 'fan', 'FAN09G4764' => 'fan', 'FAN14G1241' => 'fan', 'FAN14G2268' => 'fan', 'FAN14G4086' => 'fan', 'FAN14G5965' => 'fan', 'FAN15G0893' => 'fan', 'FAN15G1365' => 'fan', 'FAN20G0111' => 'fan', 'FAN20G2173' => 'fan', 'FAN23G1920' => 'fan', 'FAN24G3580' => 'fan', 'FAN27G0780' => 'fan', 'FAN27G3413' => 'fan', 'FvH4_2g08140' => 'fve', 'FvH4_2g40310' => 'fve', 'FvH4_6g23240' => 'fve', 'FvH4_6g36950' => 'fve', 'FvH4_6g36960' => 'fve', 'FvH4_6g36962' => 'fve', 'FvH4_7g09451' => 'fve', 'Glyma.02G181300' => 'gma', 'Glyma.03G139700' => 'gma', 'Glyma.10G095500' => 'gma', 'Glyma.11G120600' => 'gma', 'Glyma.12G045700' => 'gma', 'Glyma.14G077500' => 'gma', 'Glyma.15G034100' => 'gma', 'Glyma.17G248200' => 'gma', 'Glyma.19G142500' => 'gma', 'Gohir.A01G134200' => 'ghi', 'Gohir.A01G196300' => 'ghi', 'Gohir.A06G012100' => 'ghi', 'Gohir.A08G013550' => 'ghi', 'Gohir.A09G124200' => 'ghi', 'Gohir.A13G048300' => 'ghi', 'Gohir.D01G186600' => 'ghi', 'Gohir.D02G058925' => 'ghi', 'Gohir.D06G009500' => 'ghi', 'Gohir.D07G101301' => 'ghi', 'Gohir.D08G024000' => 'ghi', 'Gohir.D09G121000' => 'ghi', 'Gohir.D13G046700' => 'ghi', 'Gorai.001G109200' => 'gra', 'Gorai.002G230000' => 'gra', 'Gorai.004G019300' => 'gra', 'Gorai.004G019400' => 'gra', 'Gorai.006G138600' => 'gra', 'Gorai.010G012300' => 'gra', 'Gorai.013G052400' => 'gra', 'GSVIVG01009645001' => 'vvi', 'GSVIVG01022423001' => 'vvi', 'GSVIVG01031915001' => 'vvi', 'GSVIVG01033326001' => 'vvi', 'HanXRQChr00c0117g0571721' => 'han', 'HanXRQChr01g0008361' => 'han', 'HanXRQChr07g0195511' => 'han', 'HanXRQChr09g0268421' => 'han', 'HanXRQChr10g0290371' => 'han', 'HanXRQChr10g0307111' => 'han', 'HanXRQChr13g0390611' => 'han', 'HanXRQChr13g0390621' => 'han', 'HanXRQChr13g0390661' => 'han', 'Haze_02418' => 'cav', 'Haze_17623' => 'cav', 'Haze_19910' => 'cav', 'Haze_23123' => 'cav', 'Hma1.2p1_0066F.1_g036740' => 'hma', 'Hma1.2p1_0861F.1_g229740' => 'hma', 'HPP92_007904' => 'vpl', 'HPP92_016840' => 'vpl', 'Hund19168' => 'sun', 'Hund22040' => 'sun', 'Hund24742' => 'sun', 'Hund26582' => 'sun', 'Hund29069' => 'sun', 'Hund29072' => 'sun', 'Hund29767' => 'sun', 'Hund29769' => 'sun', 'Lalb_Chr01g0002731' => 'lal', 'Lalb_Chr14g0369051' => 'lal', 'Lalb_Chr20g0110891' => 'lal', 'Lalb_Chr22g0352381' => 'lal', 'Lalb_Chr24g0399071' => 'lal', 'Lalb_Chr25g0287441' => 'lal', 'Lj1A338G11' => 'lonja', 'Lj1g0008278' => 'lja', 'Lj2A378T27' => 'lonja', 'Lj3g0020577' => 'lja', 'Lj3g0021146' => 'lja', 'Lj4C45G2' => 'lonja', 'Lj5C200G17' => 'lonja', 'Lj5g0013345' => 'lja', 'Lj7C596G5' => 'lonja', 'Lsat_1_v5_gn_1_18540' => 'lsa', 'Lsat_1_v5_gn_2_97581' => 'lsa', 'Lsat_1_v5_gn_4_121661' => 'lsa', 'Lsat_1_v5_gn_4_48120' => 'lsa', 'Lsat_1_v5_gn_5_118280' => 'lsa', 'Lsat_1_v5_gn_5_162720' => 'lsa', 'Lsat_1_v5_gn_9_27520' => 'lsa', 'Manes.05G163700' => 'mes', 'Manes.06G165350' => 'mes', 'Manes.08G048300' => 'mes', 'Manes.09G029000' => 'mes', 'Manes.15G148200' => 'mes', 'Manes.18G030100' => 'mes', 'Mapoly0022s0149' => 'mpo', 'Mapoly0027s0024' => 'mpo', 'MBI01_g18893_MAGBIO' => 'mbi', 'MBI04_g28753_MAGBIO' => 'mbi', 'MBI16_g32006_MAGBIO' => 'mbi', 'MCO05G319' => 'mco', 'MD00G1164400' => 'mdo', 'MD03G1176900' => 'mdo', 'MD03G1177000' => 'mdo', 'MD08G1036500' => 'mdo', 'MD10G1081700' => 'mdo', 'MD12G1066700' => 'mdo', 'MD14G1067300' => 'mdo', 'Medtr1g021925' => 'mtr', 'Medtr1g052685' => 'mtr', 'Medtr2g097980' => 'mtr', 'Medtr4g069140' => 'mtr', 'Medtr7g092280' => 'mtr', 'Medtr8g099620' => 'mtr', 'MELO3C009663.2' => 'cme', 'MELO3C010918.2' => 'cme', 'MELO3C012571.2' => 'cme', 'MELO3C029477.2' => 'cme', 'MELO3C032764.2' => 'cme', 'Migut.B00266' => 'egut', 'Migut.C00683' => 'egut', 'Migut.D00594' => 'egut', 'Migut.J01783' => 'egut', 'Migut.K00071' => 'egut', 'Migut.N00520' => 'egut', 'MSTRG.19881' => 'ama', 'MSTRG.21384' => 'ama', 'MSTRG.22290' => 'ama', 'MSTRG.26111' => 'ama', 'MSTRG.5389' => 'ama', 'MSTRG.6448' => 'ama', 'Nitab4.5_0000110g0180' => 'nta', 'Nitab4.5_0000199g0030' => 'nta', 'Nitab4.5_0002940g0020' => 'nta', 'Nitab4.5_0003588g0010' => 'nta', 'Nitab4.5_0004280g0060' => 'nta', 'Nitab4.5_0004287g0080' => 'nta', 'Nitab4.5_0005819g0080' => 'nta', 'Nitab4.5_0006510g0020' => 'nta', 'Nitab4.5_0006994g0080' => 'nta', 'Nitab4.5_0008117g0020' => 'nta', 'Nitab4.5_0008571g0010' => 'nta', 'Nitab4.5_0012349g0010' => 'nta', 'Nn1g05112' => 'nnu', 'Nn2g15467' => 'nnu', 'Nn5g29491' => 'nnu', 'Nn7g36135' => 'nnu', 'Oeu014324.1' => 'oeu', 'Oeu018010.1' => 'oeu', 'Oeu025450.1' => 'oeu', 'Oeu033777.1' => 'oeu', 'Oeu064320.2' => 'oeu', 'Os01g0782500' => 'osa', 'Os05g0502200' => 'osa', 'Os11g0637800' => 'osa', 'Peaxi162Scf00016g01030' => 'pax', 'Peaxi162Scf00189g00312' => 'pax', 'Peaxi162Scf00581g00611' => 'pax', 'Peaxi162Scf00684g00575' => 'pax', 'Peaxi162Scf01398g00013' => 'pax', 'PGR004G1619' => 'pgr', 'PGR042G0700' => 'pgr', 'PGR119G1494' => 'pgr', 'PGSC0003DMG400007346' => 'stu', 'PGSC0003DMG400008151' => 'stu', 'PGSC0003DMG401025167' => 'stu', 'PGSC0003DMG402016888' => 'stu', 'Phvul.001G016800' => 'pvu', 'Phvul.001G136600' => 'pvu', 'Phvul.007G255300' => 'pvu', 'Phvul.011G047600' => 'pvu', 'Phvul.L009443' => 'pvu', 'Potri.001G259200' => 'ptr', 'Potri.002G133100' => 'ptr', 'Potri.006G055000' => 'ptr', 'Potri.009G054500' => 'ptr', 'Potri.009G112307' => 'ptr', 'Potri.014G040600' => 'ptr', 'Potri.016G053000' => 'ptr', 'Potri.T125204' => 'ptr', 'Pp3c11_16130' => 'ppa', 'Pp3c4_12860' => 'ppa', 'Pp3c5_2710' => 'ppa', 'Pp3c6_18010' => 'ppa', 'PRCOL_00006017' => 'pco', 'Prupe.1G383800' => 'ppe', 'Prupe.4G245800' => 'ppe', 'Prupe.4G245900' => 'ppe', 'Prupe.7G067600' => 'ppe', 'Prupe.8G103400' => 'ppe', 'Psat0s1894g0120' => 'psa', 'Psat2g020960' => 'psa', 'Psat5g263240' => 'psa', 'Psat5g286440' => 'psa', 'Psat6g032600' => 'psa', 'Psat6g126560' => 'psa', 'Psat7g024240' => 'psa', 'Psat7g185040' => 'psa', 'PSO339G1492' => 'pso', 'PSO384G2588' => 'pso', 'PSO541G3837' => 'pso', 'PSO700G0126' => 'pso', 'QL01p004991' => 'qlo', 'QL02p007341' => 'qlo', 'QL07p021721' => 'qlo', 'QL11p042344' => 'qlo', 'RcHm_v2.0_Chr2g0149391' => 'rch', 'RcHm_v2.0_Chr2g0149421' => 'rch', 'RcHm_v2.0_Chr2g0149441' => 'rch', 'RcHm_v2.0_Chr2g0149461' => 'rch', 'RcHm_v2.0_Chr2g0149471' => 'rch', 'RcHm_v2.0_Chr2g0149481' => 'rch', 'RcHm_v2.0_Chr3g0481071' => 'rch', 'RcHm_v2.0_Chr4g0396181' => 'rch', 'RcHm_v2.0_Chr6g0262951' => 'rch', 'RcHm_v2.0_Chr6g0300431' => 'rch', 'RcHm_v2.0_Chr7g0219171' => 'rch', 'Rhsim01G0191300' => 'rsi', 'Rhsim05G0076800' => 'rsi', 'Rhsim06G0036800' => 'rsi', 'Rhsim13G0222100' => 'rsi', 'RhsimUnG0011900' => 'rsi', 'RhsimUnG0228300' => 'rsi', 'Sabra02G0104000' => 'sbr', 'Sabra06G0039000' => 'sbr', 'Sabra09G0039800' => 'sbr', 'Sabra09G0085700' => 'sbr', 'Sabra12G0092100' => 'sbr', 'Sabra14G0029700' => 'sbr', 'Sabra16G0056200' => 'sbr', 'Sabra16G0158800' => 'sbr', 'SalBow1G7335' => 'sbo', 'SalBow1G8727' => 'sbo', 'SalBow6G3424' => 'sbo', 'SalBow6G6676' => 'sbo', 'SalBow8G4940' => 'sbo', 'Sc02g0006550' => 'sci', 'Sc06g0004550' => 'sci', 'Sc13g0001950' => 'sci', 'Sc18g0004700' => 'sci', 'Sc19g0006680' => 'sci', 'Sed0001265' => 'sed', 'Sed0015205' => 'sed', 'Sed0017221' => 'sed', 'Sed0021864' => 'sed', 'Sed0026090' => 'sed', 'Sed0026763' => 'sed', 'Sed0026967' => 'sed', 'SEGI_00577' => 'sgi', 'SEGI_02484' => 'sgi', 'SEGI_31677' => 'sgi', 'SEGI_32300' => 'sgi', 'SEGI_40452' => 'sgi', 'SGA_v2.0_scaffold14G07056' => 'sas', 'SGA_v2.0_scaffold32G13146' => 'sas', 'SGA_v2.0_scaffold33G13514' => 'sas', 'SGA_v2.0_scaffold69G23096' => 'sas', 'SGA_v2.0_scaffold8G04597' => 'sas', 'SGA_v2.0_scaffold94G28454' => 'sas', 'SHI08216' => 'shi', 'SHI29753' => 'shi', 'SHI29755' => 'shi', 'SHI29756' => 'shi', 'SMO117G0246' => 'smo', 'SMO367G0950' => 'smo', 'Solyc01g109370.3' => 'sly', 'Solyc03g063880.3' => 'sly', 'Solyc04g079880.4' => 'sly', 'Solyc08g060830.4' => 'sly', 'Solyc10g079110.2' => 'sly', 'Solyc11g065890.2' => 'sly', 'Sopen01g051560' => 'spe', 'Sopen03g017300' => 'spe', 'Sopen04g033450' => 'spe', 'Sopen10g029750' => 'spe', 'Sopen11g025630' => 'spe', 'Sp1g33940' => 'spa', 'Sp1g37980' => 'spa', 'Sp3g16950' => 'spa', 'Sp5g04980' => 'spa', 'Sp5g30150' => 'spa', 'TAR328G0001' => 'tar', 'TAR369G0896' => 'tar', 'TAR369G1144' => 'tar', 'TAR376G0169' => 'tar', 'TAR623G0535' => 'tar', 'TAR628G0717' => 'tar', 'THA.LOC104800068' => 'tha', 'THA.LOC104802313' => 'tha', 'THA.LOC104806457' => 'tha', 'THA.LOC104813847' => 'tha', 'THA.LOC104817906' => 'tha', 'THA.LOC104824457' => 'tha', 'Thecc.02G122000' => 'tca', 'Thecc.05G162400' => 'tca', 'Thecc.08G021900' => 'tca', 'Thecc.09G231600' => 'tca', 'Thecc.09G231800' => 'tca', 'Thhalv10006028m.g' => 'esa', 'Thhalv10011593m.g' => 'esa', 'Thhalv10018706m.g' => 'esa', 'Thhalv10020918m.g' => 'esa', 'TPR.G15732' => 'tpr', 'TPR.G28049' => 'tpr', 'TPR.G29923' => 'tpr', 'TPR.G32521' => 'tpr', 'TPR.G3420' => 'tpr', 'TPR.G6899' => 'tpr', 'TWI12G0261' => 'twi', 'TWI32G1000' => 'twi', 'TWI53G1581' => 'twi', 'TWI75G1722' => 'twi', 'TWI77G0346' => 'twi', 'TWI79G0970' => 'twi', 'unitig_22.g6031' => 'ugi', 'unitig_22.g6778' => 'ugi', 'unitig_22.g6859' => 'ugi', 'unitig_26.g10030' => 'ugi', 'unitig_26.g9442' => 'ugi', 'unitig_8.g3513' => 'ugi', 'vmacro04204' => 'vma', 'vmacro04205' => 'vma', 'vmacro07867' => 'vma', 'vmacro19440' => 'vma', 'vmacro21609' => 'vma', 'VMungo0647G0986' => 'vmu', 'VMungo0720G0050' => 'vmu', 'VMungo1080G1614' => 'vmu', 'VMungo1127G1731' => 'vmu', 'VMungo1383G1318' => 'vmu', 'Zm00001eb115270' => 'zma', 'Zm00001eb151440' => 'zma', 'Zm00001eb166180' => 'zma', 'Zm00001eb292040' => 'zma' ) $gf_id = 'HOM05D001030' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001030' ) $data_identifier = 'HOM05D001030' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 21, 'aar' => (int) 5, 'aag' => (int) 4, 'ach' => (int) 6, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 12, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 9, 'bca' => (int) 20, 'bol' => (int) 12, 'bra' => (int) 11, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 4, 'cde' => (int) 4, 'cfa' => (int) 4, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 6, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 6, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 20, 'fve' => (int) 7, 'gma' => (int) 9, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 2, 'sun' => (int) 8, 'lal' => (int) 6, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 3, 'mco' => (int) 1, 'mdo' => (int) 7, 'mtr' => (int) 6, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 5, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 4, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 4, 'qlo' => (int) 4, 'rch' => (int) 11, 'rsi' => (int) 6, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 6, 'shi' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 5, 'spa' => (int) 5, 'tar' => (int) 6, 'tha' => (int) 6, 'tca' => (int) 5, 'esa' => (int) 4, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 5, 'vmu' => (int) 5, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb292040' $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